Gene loci information

Transcript annotation

  • This transcript has been annotated as Histone-lysine N-methyltransferase SETMAR.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_4 g14368 g14368.t1 isoform g14368.t1 72663 73833
chr_4 g14368 g14368.t1 exon g14368.t1.exon1 72663 72852
chr_4 g14368 g14368.t1 cds g14368.t1.CDS1 72663 72852
chr_4 g14368 g14368.t1 exon g14368.t1.exon2 72932 73095
chr_4 g14368 g14368.t1 cds g14368.t1.CDS2 72932 73095
chr_4 g14368 g14368.t1 exon g14368.t1.exon3 73156 73833
chr_4 g14368 g14368.t1 cds g14368.t1.CDS3 73156 73833
chr_4 g14368 g14368.t1 TSS g14368.t1 NA NA
chr_4 g14368 g14368.t1 TTS g14368.t1 NA NA

Sequences

>g14368.t1 Gene=g14368 Length=1032
ATGAAAAATTCTAAAATTGAAAAAGACCATATACGACATCTTTTGTTGTTTAATTACAAC
AAAGGAATGAAAGCAAGGGCTGCTTTCCGGGAGATTGACAAAGTTTATCCTGGATCAATT
TCAGTTGTTAGTGCAATAAGATGGTTTAAAAAATTCCGTGAAGGTGATCTAAGCTTGAAA
CGAAAAGAAGGTACTGGAAAAGAGAAAACTTTTAGTGATGACGATTTGAAATTGGTAGTC
AAGTCAAATCCATACATGACACTCAATGATTTCGCAGCAATTTTTGATGTGACTAAATCA
TGTTTATCAAAAAGAATGAAGGTCATTAATTTCACAAATAAAAACACTCTATGGGTACCT
CATGTTTTGTCAAACAAAAACAAATGTGATCGCTTAACAATTTGCATGGAACTTCTCAAG
CGCTATCAAGAAGAAAACTTTTTAGATTATATTGTCACAGGTGATGAAACATGGGTGTTG
TACGAGAATGTGGCACAGAGAAGAGAATGGTCAGAACGTGGTGAAATTCCAGGAAAAACA
GCAAAGGCAGGTCTTCATCCAAAAAAAATTTTACTTTCGCTCTGGTGGGACGTGAAGGGC
ATAATCTATCTTGAATTTCTTAATCGAAACGAGACTATCAATGCTATTAAATATCAGCAA
CAACTCCGGGATTTGCGTGAGGCTCTAGCATTGTCGCGACCATCTTTGTTCAATCGAGGT
AAAGTGCATTTTCATCACGACAATGCTAGACCTCATACAGCGCGAGATACAGTAGCATTG
CTTAAATCTTTTGAATGGAACATAATACCTCAGGCCCCTTATAGTCCAGATCTTGCACCA
TCTGACTACTACCTATTTACAGCATTGAAAAATGCACTCAAAAACAAAAAATTTACAAAT
GATAACGAATTGAAAGATTTTGTTAAAAAGTTTTTTGCTTCCAAGGAACCTACTTTTTAT
AAAAAAGGTATCTACAAACTGCCATCTCTTTGGCAAAGTGTTGTAAATTGTGGTGGTGAT
TATGCTAAATAA

>g14368.t1 Gene=g14368 Length=343
MKNSKIEKDHIRHLLLFNYNKGMKARAAFREIDKVYPGSISVVSAIRWFKKFREGDLSLK
RKEGTGKEKTFSDDDLKLVVKSNPYMTLNDFAAIFDVTKSCLSKRMKVINFTNKNTLWVP
HVLSNKNKCDRLTICMELLKRYQEENFLDYIVTGDETWVLYENVAQRREWSERGEIPGKT
AKAGLHPKKILLSLWWDVKGIIYLEFLNRNETINAIKYQQQLRDLREALALSRPSLFNRG
KVHFHHDNARPHTARDTVALLKSFEWNIIPQAPYSPDLAPSDYYLFTALKNALKNKKFTN
DNELKDFVKKFFASKEPTFYKKGIYKLPSLWQSVVNCGGDYAK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g14368.t1 Coils Coil Coil 208 228 -
4 g14368.t1 Gene3D G3DSA:1.10.10.1450 - 6 53 4.9E-5
5 g14368.t1 Gene3D G3DSA:3.30.420.470 - 105 343 3.2E-92
3 g14368.t1 PANTHER PTHR46060 MARINER MOS1 TRANSPOSASE-LIKE PROTEIN 7 342 1.6E-95
1 g14368.t1 Pfam PF17906 HTH domain in Mos1 transposase 8 56 3.0E-9
2 g14368.t1 Pfam PF01359 Transposase (partial DDE domain) 160 238 3.1E-23

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed